Dennis Kostka, Ph.D.

  • Associate Professor
  • Department of Developmental Biology

Education & Training

  • Ph.D. from Max Planck Institute for Molecular Genetics, Berlin, Germany, 2006
  • M.S. from University of Heidelberg, Heidelberg, Germany 2002

Research Interest Summary

Gene expression and its regulation in development and disease.

Research Categories

Research Interests

How do different organs and tissues arise? What mechanisms drive this development? To address these questions we design computational methods and apply them to genetics and genomics data. Ultimately, our goal is to generate, test, and follow up on hypotheses that are relevant to human health. For an overview of current project, please see

Representative Publications

scds: Computational Annotation of Doublets in Single Cell RNA Sequencing Data. AS Bais and D Kostka. Bioinformatics 2020, 36(4):1150–1158

Genome-wide Enhancer Maps Differ Significantly in Genomic Distribution, Evolution, and Function. ML Benton, SC Talipineni, D Kostka, JA Capra. BMC Genomics 2019, 20(1):511.

Random forest based similarity learning for single cell RNA sequencing data. MB Pouyan and D Kostka. Bioinformatics 2018, 34(13):i79-i88.

Small non-coding RNA expression in developing mouse nephron progenitor cells. YL Phua, A Clugston, KH Chen, D Kostka, J Ho. Scientific Data 2018, Article number: 180218.

Full List of Publications